If env_conf.xml or env_mach_pes.xml variables need to be changed after
configure has been called, the case scripts will need to be reconfigured.
To do this, run

> cd $CASEROOT
> configure -cleanall
> configure -case

This will update the buildnml and buildexe files in the Buildconf directory
and the case build and run scripts in the CASEROOT directory. If only variables
in env_conf.xml have change, clean and reconfigure just the files in Buildconf
by doing

> cd $CASEROOT
> configure -cleannamelist
> configure -case

If only variables in env_mach_pes.xml have changed, clean and reconfigure
the build and run scripts by doing

> cd $CASEROOT
> configure -cleanmach
> configure -case

Note that the -cleanall option does a combination of the -cleannamelist and -cleanmach
options. Reconfiguring with -cleanall results in the
loss of all local modifications to the component buildnml or buildexe
files in Buildconf as well as the loss of all local modifications to
the local build and run scripts.